Start: 2024-01-29 06:53:47 GMT Package: smrtanalysis-dev Source: smrtanalysis Version: 0~20210111 Installed-Size: 9 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: python3-pbcore, python3-pbcommand, python3-pbconsensuscore, libpbseq-dev, libpbbam-dev Suggests: python-pbgenomicconsensus, python-pbh5tools, python-pbalign, python-kineticstools Description: develepment libraries for smrtanalysis Homepage: https://www.pacb.com/products-and-services/analytical-software/smrt-analysis/ Description-md5: 1a10b42e923f01861162fa9b4749811c Tag: devel::library, role::devel-lib Section: libdevel Priority: optional Filename: pool/main/s/smrtanalysis/smrtanalysis-dev_0~20210111_amd64.deb Size: 3124 MD5sum: c7ac0f5aefaa46d378844d137ee9cd38 SHA256: 9bddfc9424dde5a3ba5963a40676e43d5577d3170a2ca7302c4e33f0190ff40d Executing: sudo env PYTHONPATH=/srv/piuparts.debian.org/lib/python3/dist-packages timeout -s INT -k 5m 80m /srv/piuparts.debian.org/sbin/piuparts --scriptsdir /etc/piuparts/scripts-log-alternatives --scriptsdir /etc/piuparts/scripts --no-eatmydata --allow-database --warn-on-leftovers-after-purge --warn-on-usr-move fail --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/bullseye-merged-usr_amd64.tar.gz -d bullseye --no-upgrade-test --apt 'smrtanalysis-dev=0~20210111' 0m0.0s INFO: ------------------------------------------------------------------------------ 0m0.0s INFO: To quickly glance what went wrong, scroll down to the bottom of this logfile. 0m0.0s INFO: FAQ available at https://wiki.debian.org/piuparts/FAQ 0m0.0s INFO: The FAQ also explains how to contact us in case you think piuparts is wrong. 0m0.0s INFO: ------------------------------------------------------------------------------ 0m0.0s INFO: piuparts version 1.2 starting up. 0m0.0s INFO: Command line arguments: /srv/piuparts.debian.org/sbin/piuparts --scriptsdir /etc/piuparts/scripts-log-alternatives --scriptsdir /etc/piuparts/scripts --no-eatmydata --allow-database --warn-on-leftovers-after-purge --warn-on-usr-move fail --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/bullseye-merged-usr_amd64.tar.gz -d bullseye --no-upgrade-test --apt 'smrtanalysis-dev=0~20210111' 0m0.0s INFO: Running on: Linux piu-slave-conova-01 5.10.0-27-amd64 #1 SMP Debian 5.10.205-2 (2023-12-31) x86_64 0m0.0s DEBUG: Created temporary directory /srv/piuparts.debian.org/tmp/tmp8bnovf3_ 0m0.0s DEBUG: Unpacking /srv/piuparts.debian.org/slave/basetgz/bullseye-merged-usr_amd64.tar.gz into /srv/piuparts.debian.org/tmp/tmp8bnovf3_ 0m0.0s DEBUG: Starting command: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', '-zxf', '/srv/piuparts.debian.org/slave/basetgz/bullseye-merged-usr_amd64.tar.gz'] 0m2.4s DEBUG: Command ok: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', '-zxf', '/srv/piuparts.debian.org/slave/basetgz/bullseye-merged-usr_amd64.tar.gz'] 0m2.4s DEBUG: Starting command: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_/proc'] 0m2.5s DEBUG: Command ok: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_/proc'] 0m2.5s DEBUG: Starting command: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_/dev/pts'] 0m2.5s DEBUG: Command ok: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_/dev/pts'] 0m2.5s DEBUG: Starting command: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_/dev/ptmx'] 0m2.5s DEBUG: Command ok: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_/dev/ptmx'] 0m2.5s DEBUG: Starting command: ['mount', '-o', 'bind', '/dev/pts/2', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_/dev/console'] 0m2.5s DEBUG: Command ok: ['mount', '-o', 'bind', '/dev/pts/2', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_/dev/console'] 0m2.5s DEBUG: Starting command: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_/dev/shm'] 0m2.5s DEBUG: Command ok: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_/dev/shm'] 0m2.5s DEBUG: sources.list: deb http://deb.debian.org/debian/ bullseye main 0m2.5s DEBUG: Created policy-rc.d and chmodded it. 0m2.5s DEBUG: Created resolv.conf. 0m2.5s DEBUG: Copying scriptsdir /etc/piuparts/scripts-log-alternatives to /srv/piuparts.debian.org/tmp/tmp8bnovf3_/tmp/scripts/ 0m2.5s DEBUG: Copying scriptsdir /etc/piuparts/scripts to /srv/piuparts.debian.org/tmp/tmp8bnovf3_/tmp/scripts/ 0m2.5s INFO: Running scripts post_chroot_unpack 0m2.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m2.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m2.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'apt-get', 'update'] 0m3.8s DUMP: Hit:1 http://deb.debian.org/debian bullseye InRelease Reading package lists... 0m3.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'apt-get', 'update'] 0m3.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'apt-get', '-yf', 'dist-upgrade'] 0m4.3s DUMP: Reading package lists... Building dependency tree... Calculating upgrade... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m4.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'apt-get', '-yf', 'dist-upgrade'] 0m4.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m5.1s DUMP: cd994be14815166bf41ad7cebd6f56fc - 0m5.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m5.1s INFO: Running scripts post_setup 0m5.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'tmp/scripts/post_setup_dummy_users'] 0m6.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'tmp/scripts/post_setup_dummy_users'] 0m6.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'tmp/scripts/post_setup_forbid_home'] 0m6.6s DUMP: Disabling /home Adding 'local diversion of /home to /home.distrib' 0m6.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'tmp/scripts/post_setup_forbid_home'] 0m6.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'tmp/scripts/post_setup_force-unsafe-io'] 0m6.6s DUMP: Enabling dpkg --force-unsafe-io. Adding 'local diversion of /bin/sync to /bin/sync.distrib' dpkg-divert: warning: diverting file '/bin/sync' from an Essential package with rename is dangerous, use --no-rename '/bin/sync' -> 'true' 0m6.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'tmp/scripts/post_setup_force-unsafe-io'] 0m6.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'tmp/scripts/post_setup_minimize'] 0m6.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'tmp/scripts/post_setup_minimize'] 0m6.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'tmp/scripts/post_setup_squeeze-backports'] 0m6.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'tmp/scripts/post_setup_squeeze-backports'] 0m6.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'tmp/scripts/post_setup_zz_backports'] 0m6.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'tmp/scripts/post_setup_zz_backports'] 0m6.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'apt-get', 'clean'] 0m6.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'apt-get', 'clean'] 0m6.7s DEBUG: Recording chroot state 0m7.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m7.1s DUMP: install ok installed adduser adduser 3.118+deb11u1 install ok installed apt apt 2.2.4 install ok installed base-files base-files 11.1+deb11u8 install ok installed base-passwd base-passwd 3.5.51 install ok installed bash bash 5.1-2+deb11u1 install ok installed bsdutils bsdutils 1:2.36.1-8+deb11u1 install ok installed coreutils coreutils 8.32-4+b1 install ok installed dash dash 0.5.11+git20200708+dd9ef66-5 install ok installed debconf debconf 1.5.77 install ok installed debian-archive-keyring debian-archive-keyring 2021.1.1+deb11u1 install ok installed debianutils debianutils 4.11.2 install ok installed diffutils diffutils 1:3.7-5 install ok installed dpkg dpkg 1.20.13 install ok installed e2fsprogs e2fsprogs 1.46.2-2 install ok installed findutils findutils 4.8.0-1 install ok installed gcc-10-base:amd64 gcc-10-base 10.2.1-6 install ok installed gcc-9-base:amd64 gcc-9-base 9.3.0-22 install ok installed gpgv gpgv 2.2.27-2+deb11u2 install ok installed grep grep 3.6-1+deb11u1 install ok installed gzip gzip 1.10-4+deb11u1 install ok installed hostname hostname 3.23 install ok installed init-system-helpers init-system-helpers 1.60 install ok installed libacl1:amd64 libacl1 2.2.53-10 install ok installed libapt-pkg6.0:amd64 libapt-pkg6.0 2.2.4 install ok installed libattr1:amd64 libattr1 1:2.4.48-6 install ok installed libaudit-common libaudit-common 1:3.0-2 install ok installed libaudit1:amd64 libaudit1 1:3.0-2 install ok installed libblkid1:amd64 libblkid1 2.36.1-8+deb11u1 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.8-4 install ok installed libc-bin libc-bin 2.31-13+deb11u6 install ok installed libc6:amd64 libc6 2.31-13+deb11u6 install ok installed libcap-ng0:amd64 libcap-ng0 0.7.9-2.2+b1 install ok installed libcom-err2:amd64 libcom-err2 1.46.2-2 install ok installed libcrypt1:amd64 libcrypt1 1:4.4.18-4 install ok installed libdb5.3:amd64 libdb5.3 5.3.28+dfsg1-0.8 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.260 install ok installed libext2fs2:amd64 libext2fs2 1.46.2-2 install ok installed libffi7:amd64 libffi7 3.3-6 install ok installed libgcc-s1:amd64 libgcc-s1 10.2.1-6 install ok installed libgcrypt20:amd64 libgcrypt20 1.8.7-6 install ok installed libgmp10:amd64 libgmp10 2:6.2.1+dfsg-1+deb11u1 install ok installed libgnutls30:amd64 libgnutls30 3.7.1-5+deb11u3 install ok installed libgpg-error0:amd64 libgpg-error0 1.38-2 install ok installed libgssapi-krb5-2:amd64 libgssapi-krb5-2 1.18.3-6+deb11u4 install ok installed libhogweed6:amd64 libhogweed6 3.7.3-1 install ok installed libidn2-0:amd64 libidn2-0 2.3.0-5 install ok installed libk5crypto3:amd64 libk5crypto3 1.18.3-6+deb11u4 install ok installed libkeyutils1:amd64 libkeyutils1 1.6.1-2 install ok installed libkrb5-3:amd64 libkrb5-3 1.18.3-6+deb11u4 install ok installed libkrb5support0:amd64 libkrb5support0 1.18.3-6+deb11u4 install ok installed liblz4-1:amd64 liblz4-1 1.9.3-2 install ok installed liblzma5:amd64 liblzma5 5.2.5-2.1~deb11u1 install ok installed libmount1:amd64 libmount1 2.36.1-8+deb11u1 install ok installed libnettle8:amd64 libnettle8 3.7.3-1 install ok installed libnsl2:amd64 libnsl2 1.3.0-2 install ok installed libp11-kit0:amd64 libp11-kit0 0.23.22-1 install ok installed libpam-modules:amd64 libpam-modules 1.4.0-9+deb11u1 install ok installed libpam-modules-bin libpam-modules-bin 1.4.0-9+deb11u1 install ok installed libpam-runtime libpam-runtime 1.4.0-9+deb11u1 install ok installed libpam0g:amd64 libpam0g 1.4.0-9+deb11u1 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.36-2+deb11u1 install ok installed libpcre3:amd64 libpcre3 2:8.39-13 install ok installed libseccomp2:amd64 libseccomp2 2.5.1-1+deb11u1 install ok installed libselinux1:amd64 libselinux1 3.1-3 install ok installed libsemanage-common libsemanage-common 3.1-1 install ok installed libsemanage1:amd64 libsemanage1 3.1-1+b2 install ok installed libsepol1:amd64 libsepol1 3.1-1 install ok installed libsmartcols1:amd64 libsmartcols1 2.36.1-8+deb11u1 install ok installed libss2:amd64 libss2 1.46.2-2 install ok installed libssl1.1:amd64 libssl1.1 1.1.1w-0+deb11u1 install ok installed libstdc++6:amd64 libstdc++6 10.2.1-6 install ok installed libsystemd0:amd64 libsystemd0 247.3-7+deb11u4 install ok installed libtasn1-6:amd64 libtasn1-6 4.16.0-2+deb11u1 install ok installed libtinfo6:amd64 libtinfo6 6.2+20201114-2+deb11u2 install ok installed libtirpc-common libtirpc-common 1.3.1-1+deb11u1 install ok installed libtirpc3:amd64 libtirpc3 1.3.1-1+deb11u1 install ok installed libudev1:amd64 libudev1 247.3-7+deb11u4 install ok installed libunistring2:amd64 libunistring2 0.9.10-4 install ok installed libuuid1:amd64 libuuid1 2.36.1-8+deb11u1 install ok installed libxxhash0:amd64 libxxhash0 0.8.0-2 install ok installed libzstd1:amd64 libzstd1 1.4.8+dfsg-2.1 install ok installed login login 1:4.8.1-1 install ok installed logsave logsave 1.46.2-2 install ok installed lsb-base lsb-base 11.1.0 install ok installed mawk mawk 1.3.4.20200120-2 install ok installed mount mount 2.36.1-8+deb11u1 install ok installed ncurses-base ncurses-base 6.2+20201114-2+deb11u2 install ok installed ncurses-bin ncurses-bin 6.2+20201114-2+deb11u2 install ok installed passwd passwd 1:4.8.1-1 install ok installed perl-base perl-base 5.32.1-4+deb11u2 install ok installed sed sed 4.7-1 install ok installed sysvinit-utils sysvinit-utils 2.96-7+deb11u1 install ok installed tar tar 1.34+dfsg-1 install ok installed tzdata tzdata 2021a-1+deb11u10 install ok installed util-linux util-linux 2.36.1-8+deb11u1 install ok installed zlib1g:amd64 zlib1g 1:1.2.11.dfsg-2+deb11u2 0m7.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m7.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'dpkg-divert', '--list'] 0m7.1s DUMP: local diversion of /bin/sync to /bin/sync.distrib diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by dash local diversion of /home to /home.distrib diversion of /bin/sh to /bin/sh.distrib by dash 0m7.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'dpkg-divert', '--list'] 0m7.1s INFO: Running scripts is_testable 0m7.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'tmp/scripts/is_testable_uninstallable'] 0m7.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'tmp/scripts/is_testable_uninstallable'] 0m7.2s INFO: apt-cache does not know about any of the requested packages 0m7.2s INFO: Running scripts pre_test 0m7.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'tmp/scripts/pre_test_exceptions'] 0m7.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'tmp/scripts/pre_test_exceptions'] 0m7.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'tmp/scripts/pre_test_root_password'] 0m7.2s DUMP: New password: Retype new password: passwd: password updated successfully 0m7.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'tmp/scripts/pre_test_root_password'] 0m7.2s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_'] 0m7.7s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_'] 0m8.1s DEBUG: No broken symlinks as far as we can find. 0m8.1s INFO: Running scripts pre_install 0m8.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'tmp/scripts/pre_install_database-server'] 0m8.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'tmp/scripts/pre_install_database-server'] 0m8.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'tmp/scripts/pre_install_exceptions'] 0m8.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'tmp/scripts/pre_install_exceptions'] 0m8.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'tmp/scripts/pre_install_extras'] 0m8.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'tmp/scripts/pre_install_extras'] 0m8.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'tmp/scripts/pre_install_foreign_architecture'] 0m8.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'tmp/scripts/pre_install_foreign_architecture'] 0m8.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m8.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m8.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'tmp/scripts/pre_install_log_alternatives'] 0m8.2s DUMP: Adding 'local diversion of /usr/bin/update-alternatives to /usr/bin/update-alternatives.orig' dpkg-divert: warning: diverting file '/usr/bin/update-alternatives' from an Essential package with rename is dangerous, use --no-rename 0m8.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'tmp/scripts/pre_install_log_alternatives'] 0m8.2s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_'] 0m8.5s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_'] 0m9.0s DEBUG: No broken symlinks as far as we can find. 0m9.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'apt-cache', 'policy'] 0m9.5s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian bullseye/main amd64 Packages release v=11.8,o=Debian,a=oldstable,n=bullseye,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m9.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'apt-cache', 'policy'] 0m9.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'apt-cache', 'policy', 'smrtanalysis-dev'] 0m9.6s DUMP: smrtanalysis-dev: Installed: (none) Candidate: 0~20210111 Version table: 0~20210111 500 500 http://deb.debian.org/debian bullseye/main amd64 Packages 0m9.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'apt-cache', 'policy', 'smrtanalysis-dev'] 0m9.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'apt-get', '-y', 'install', 'smrtanalysis-dev=0~20210111'] 0m27.8s DUMP: Reading package lists... Building dependency tree... The following additional packages will be installed: ca-certificates hdf5-helpers libaec-dev libaec0 libblas3 libblasr-dev libblasr5.3.4 libbrotli1 libbsd0 libc-dev-bin libc6-dev libcrypt-dev libcurl3-gnutls libcurl4-gnutls-dev libdeflate-dev libdeflate0 libexpat1 libfreetype6 libgdbm-compat4 libgdbm6 libgfortran5 libhdf5-103-1 libhdf5-cpp-103-1 libhdf5-dev libhdf5-fortran-102 libhdf5-hl-100 libhdf5-hl-cpp-100 libhdf5-hl-fortran-100 libhts-dev libhts3 libimagequant0 libjbig0 libjpeg-dev libjpeg62-turbo libjpeg62-turbo-dev liblapack3 liblcms2-2 libldap-2.4-2 liblzma-dev libmd0 libmpdec3 libncursesw6 libnghttp2-14 libnsl-dev libpbbam-dev libpbbam1.6.0 libpbcopper-dev libpbcopper1.8.0 libpbdata-dev libpbihdf-dev libpbseq-dev libperl5.32 libpng16-16 libpsl5 libpython3-stdlib libpython3.9-minimal libpython3.9-stdlib libquadmath0 libreadline8 librtmp1 libsasl2-2 libsasl2-modules-db libsqlite3-0 libssh2-1 libssl-dev libsz2 libtiff5 libtirpc-dev libwebp6 libwebpdemux2 libwebpmux3 libxau6 libxcb1 libxdmcp6 linux-libc-dev mailcap media-types mime-support openssl perl perl-modules-5.32 python3 python3-avro python3-biopython python3-certifi python3-chardet python3-idna python3-iso8601 python3-minimal python3-numpy python3-pbcommand python3-pbconsensuscore python3-pbcore python3-pil python3-pkg-resources python3-pysam python3-reportlab python3-reportlab-accel python3-requests python3-six python3-tz python3-urllib3 python3.9 python3.9-minimal readline-common zlib1g-dev Suggested packages: glibc-doc manpages-dev libcurl4-doc libgnutls28-dev libidn11-dev libkrb5-dev libldap2-dev librtmp-dev libssh2-1-dev pkg-config gdbm-l10n libhdf5-doc liblcms2-utils liblzma-doc sensible-utils libssl-doc perl-doc libterm-readline-gnu-perl | libterm-readline-perl-perl make libtap-harness-archive-perl python3-doc python3-tk python3-venv bwa clustalo clustalw dialign dssp emboss fasttree mafft muscle phylip phyml prank probcons python3-mysqldb python3-matplotlib python3-mmtf python3-rdflib python3-renderpm python3-psycopg2 python3-scipy raxml samtools t-coffee wise w3-dtd-mathml gcc gfortran python-numpy-doc python3-dev python3-numpy-dbg python3-pytest python-pbcore-doc python-pil-doc python3-pil-dbg python3-setuptools pdf-viewer python3-egenix-mxtexttools python-reportlab-doc python3-cryptography python3-openssl python3-socks python-requests-doc python3.9-venv python3.9-doc binutils binfmt-support readline-doc python-pbgenomicconsensus python-pbh5tools python-pbalign python-kineticstools Recommended packages: manpages manpages-dev libc-devtools libldap-common libgpm2 publicsuffix libsasl2-modules bzip2 file xz-utils netbase python-biopython-doc ncbi-blast+ python3-h5py python3-olefile python3-renderpm The following NEW packages will be installed: ca-certificates hdf5-helpers libaec-dev libaec0 libblas3 libblasr-dev libblasr5.3.4 libbrotli1 libbsd0 libc-dev-bin libc6-dev libcrypt-dev libcurl3-gnutls libcurl4-gnutls-dev libdeflate-dev libdeflate0 libexpat1 libfreetype6 libgdbm-compat4 libgdbm6 libgfortran5 libhdf5-103-1 libhdf5-cpp-103-1 libhdf5-dev libhdf5-fortran-102 libhdf5-hl-100 libhdf5-hl-cpp-100 libhdf5-hl-fortran-100 libhts-dev libhts3 libimagequant0 libjbig0 libjpeg-dev libjpeg62-turbo libjpeg62-turbo-dev liblapack3 liblcms2-2 libldap-2.4-2 liblzma-dev libmd0 libmpdec3 libncursesw6 libnghttp2-14 libnsl-dev libpbbam-dev libpbbam1.6.0 libpbcopper-dev libpbcopper1.8.0 libpbdata-dev libpbihdf-dev libpbseq-dev libperl5.32 libpng16-16 libpsl5 libpython3-stdlib libpython3.9-minimal libpython3.9-stdlib libquadmath0 libreadline8 librtmp1 libsasl2-2 libsasl2-modules-db libsqlite3-0 libssh2-1 libssl-dev libsz2 libtiff5 libtirpc-dev libwebp6 libwebpdemux2 libwebpmux3 libxau6 libxcb1 libxdmcp6 linux-libc-dev mailcap media-types mime-support openssl perl perl-modules-5.32 python3 python3-avro python3-biopython python3-certifi python3-chardet python3-idna python3-iso8601 python3-minimal python3-numpy python3-pbcommand python3-pbconsensuscore python3-pbcore python3-pil python3-pkg-resources python3-pysam python3-reportlab python3-reportlab-accel python3-requests python3-six python3-tz python3-urllib3 python3.9 python3.9-minimal readline-common smrtanalysis-dev zlib1g-dev 0 upgraded, 107 newly installed, 0 to remove and 0 not upgraded. Need to get 54.0 MB of archives. After this operation, 225 MB of additional disk space will be used. Get:1 http://deb.debian.org/debian bullseye/main amd64 perl-modules-5.32 all 5.32.1-4+deb11u2 [2823 kB] Get:2 http://deb.debian.org/debian bullseye/main amd64 libgdbm6 amd64 1.19-2 [64.9 kB] Get:3 http://deb.debian.org/debian bullseye/main amd64 libgdbm-compat4 amd64 1.19-2 [44.7 kB] Get:4 http://deb.debian.org/debian bullseye/main amd64 libperl5.32 amd64 5.32.1-4+deb11u2 [4106 kB] Get:5 http://deb.debian.org/debian bullseye/main amd64 perl amd64 5.32.1-4+deb11u2 [293 kB] Get:6 http://deb.debian.org/debian bullseye/main amd64 libpython3.9-minimal amd64 3.9.2-1 [801 kB] Get:7 http://deb.debian.org/debian bullseye/main amd64 libexpat1 amd64 2.2.10-2+deb11u5 [98.2 kB] Get:8 http://deb.debian.org/debian bullseye/main amd64 python3.9-minimal amd64 3.9.2-1 [1955 kB] Get:9 http://deb.debian.org/debian bullseye/main amd64 python3-minimal amd64 3.9.2-3 [38.2 kB] Get:10 http://deb.debian.org/debian bullseye/main amd64 media-types all 4.0.0 [30.3 kB] Get:11 http://deb.debian.org/debian bullseye/main amd64 mailcap all 3.69 [31.7 kB] Get:12 http://deb.debian.org/debian bullseye/main amd64 mime-support all 3.66 [10.9 kB] Get:13 http://deb.debian.org/debian bullseye/main amd64 libmpdec3 amd64 2.5.1-1 [87.7 kB] Get:14 http://deb.debian.org/debian bullseye/main amd64 libncursesw6 amd64 6.2+20201114-2+deb11u2 [132 kB] Get:15 http://deb.debian.org/debian bullseye/main amd64 readline-common all 8.1-1 [73.7 kB] Get:16 http://deb.debian.org/debian bullseye/main amd64 libreadline8 amd64 8.1-1 [169 kB] Get:17 http://deb.debian.org/debian bullseye/main amd64 libsqlite3-0 amd64 3.34.1-3 [797 kB] Get:18 http://deb.debian.org/debian bullseye/main amd64 libpython3.9-stdlib amd64 3.9.2-1 [1684 kB] Get:19 http://deb.debian.org/debian bullseye/main amd64 python3.9 amd64 3.9.2-1 [466 kB] Get:20 http://deb.debian.org/debian bullseye/main amd64 libpython3-stdlib amd64 3.9.2-3 [21.4 kB] Get:21 http://deb.debian.org/debian bullseye/main amd64 python3 amd64 3.9.2-3 [37.9 kB] Get:22 http://deb.debian.org/debian bullseye/main amd64 openssl amd64 1.1.1w-0+deb11u1 [859 kB] Get:23 http://deb.debian.org/debian bullseye/main amd64 ca-certificates all 20210119 [158 kB] Get:24 http://deb.debian.org/debian bullseye/main amd64 hdf5-helpers amd64 1.10.6+repack-4+deb11u1 [40.4 kB] Get:25 http://deb.debian.org/debian bullseye/main amd64 libaec0 amd64 1.0.4-1 [20.3 kB] Get:26 http://deb.debian.org/debian bullseye/main amd64 libsz2 amd64 1.0.4-1 [6760 B] Get:27 http://deb.debian.org/debian bullseye/main amd64 libaec-dev amd64 1.0.4-1 [18.7 kB] Get:28 http://deb.debian.org/debian bullseye/main amd64 libblas3 amd64 3.9.0-3+deb11u1 [153 kB] Get:29 http://deb.debian.org/debian bullseye/main amd64 libhdf5-103-1 amd64 1.10.6+repack-4+deb11u1 [1189 kB] Get:30 http://deb.debian.org/debian bullseye/main amd64 libhdf5-cpp-103-1 amd64 1.10.6+repack-4+deb11u1 [141 kB] Get:31 http://deb.debian.org/debian bullseye/main amd64 libbrotli1 amd64 1.0.9-2+b2 [279 kB] Get:32 http://deb.debian.org/debian bullseye/main amd64 libsasl2-modules-db amd64 2.1.27+dfsg-2.1+deb11u1 [69.1 kB] Get:33 http://deb.debian.org/debian bullseye/main amd64 libsasl2-2 amd64 2.1.27+dfsg-2.1+deb11u1 [106 kB] Get:34 http://deb.debian.org/debian bullseye/main amd64 libldap-2.4-2 amd64 2.4.57+dfsg-3+deb11u1 [232 kB] Get:35 http://deb.debian.org/debian bullseye/main amd64 libnghttp2-14 amd64 1.43.0-1 [77.1 kB] Get:36 http://deb.debian.org/debian bullseye/main amd64 libpsl5 amd64 0.21.0-1.2 [57.3 kB] Get:37 http://deb.debian.org/debian bullseye/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b2 [60.8 kB] Get:38 http://deb.debian.org/debian bullseye/main amd64 libssh2-1 amd64 1.9.0-2 [156 kB] Get:39 http://deb.debian.org/debian bullseye/main amd64 libcurl3-gnutls amd64 7.74.0-1.3+deb11u9 [344 kB] Get:40 http://deb.debian.org/debian bullseye/main amd64 libdeflate0 amd64 1.7-1 [53.1 kB] Get:41 http://deb.debian.org/debian bullseye/main amd64 libhts3 amd64 1.11-4 [378 kB] Get:42 http://deb.debian.org/debian bullseye/main amd64 libpbcopper1.8.0 amd64 1.8.0+dfsg-2+b1 [452 kB] Get:43 http://deb.debian.org/debian bullseye/main amd64 libpbbam1.6.0 amd64 1.6.0+dfsg-2 [687 kB] Get:44 http://deb.debian.org/debian bullseye/main amd64 libblasr5.3.4 amd64 5.3.4+dfsg-3 [1098 kB] Get:45 http://deb.debian.org/debian bullseye/main amd64 libpbcopper-dev amd64 1.8.0+dfsg-2+b1 [707 kB] Get:46 http://deb.debian.org/debian bullseye/main amd64 libpbdata-dev amd64 5.3.4+dfsg-3 [41.0 kB] Get:47 http://deb.debian.org/debian bullseye/main amd64 libblasr-dev amd64 5.3.4+dfsg-3 [2074 kB] Get:48 http://deb.debian.org/debian bullseye/main amd64 libmd0 amd64 1.0.3-3 [28.0 kB] Get:49 http://deb.debian.org/debian bullseye/main amd64 libbsd0 amd64 0.11.3-1+deb11u1 [108 kB] Get:50 http://deb.debian.org/debian bullseye/main amd64 libc-dev-bin amd64 2.31-13+deb11u6 [276 kB] Get:51 http://deb.debian.org/debian bullseye/main amd64 linux-libc-dev amd64 5.10.197-1 [1668 kB] Get:52 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http://deb.debian.org/debian bullseye/main amd64 python3-tz all 2021.1-1 [34.8 kB] Get:103 http://deb.debian.org/debian bullseye/main amd64 python3-pbcommand all 2.1.1+git20201023.cc0ed3d-1 [90.9 kB] Get:104 http://deb.debian.org/debian bullseye/main amd64 python3-pbconsensuscore amd64 1.1.1+dfsg-2+b3 [711 kB] Get:105 http://deb.debian.org/debian bullseye/main amd64 python3-pysam amd64 0.15.4+ds-3+b2 [1536 kB] Get:106 http://deb.debian.org/debian bullseye/main amd64 python3-pbcore all 1.7.1+git20200430.a127b1e+dfsg-1 [2881 kB] Get:107 http://deb.debian.org/debian bullseye/main amd64 smrtanalysis-dev amd64 0~20210111 [3124 B] debconf: delaying package configuration, since apt-utils is not installed Fetched 54.0 MB in 1s (89.7 MB/s) Selecting previously unselected package perl-modules-5.32. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 6667 files and directories currently installed.) Preparing to unpack .../0-perl-modules-5.32_5.32.1-4+deb11u2_all.deb ... Unpacking perl-modules-5.32 (5.32.1-4+deb11u2) ... Selecting previously unselected package libgdbm6:amd64. Preparing to unpack .../1-libgdbm6_1.19-2_amd64.deb ... Unpacking libgdbm6:amd64 (1.19-2) ... Selecting previously unselected package libgdbm-compat4:amd64. 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Setting up libblas3:amd64 (3.9.0-3+deb11u1) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/x86_64-linux-gnu/libblas.so.3 (libblas.so.3-x86_64-linux-gnu) in auto mode Setting up libtirpc-dev:amd64 (1.3.1-1+deb11u1) ... Setting up libjpeg62-turbo:amd64 (1:2.0.6-4) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b2) ... Setting up libquadmath0:amd64 (10.2.1-6) ... Setting up libimagequant0:amd64 (2.12.2-1.1) ... Setting up libssl-dev:amd64 (1.1.1w-0+deb11u1) ... Setting up libpng16-16:amd64 (1.6.37-3) ... Setting up libwebp6:amd64 (0.6.1-2.1+deb11u2) ... Setting up libncursesw6:amd64 (6.2+20201114-2+deb11u2) ... Setting up libsasl2-2:amd64 (2.1.27+dfsg-2.1+deb11u1) ... Setting up libgfortran5:amd64 (10.2.1-6) ... Setting up liblzma-dev:amd64 (5.2.5-2.1~deb11u1) ... Setting up libmd0:amd64 (1.0.3-3) ... Setting up libnsl-dev:amd64 (1.3.0-2) ... Setting up libcrypt-dev:amd64 (1:4.4.18-4) ... Setting up libmpdec3:amd64 (2.5.1-1) ... Setting up libpbcopper1.8.0:amd64 (1.8.0+dfsg-2+b1) ... Setting up libssh2-1:amd64 (1.9.0-2) ... Setting up libtiff5:amd64 (4.2.0-1+deb11u4) ... Setting up libc-dev-bin (2.31-13+deb11u6) ... Setting up openssl (1.1.1w-0+deb11u1) ... Setting up libwebpmux3:amd64 (0.6.1-2.1+deb11u2) ... Setting up libbsd0:amd64 (0.11.3-1+deb11u1) ... Setting up libdeflate-dev:amd64 (1.7-1) ... Setting up readline-common (8.1-1) ... Setting up libsz2:amd64 (1.0.4-1) ... Setting up libgdbm6:amd64 (1.19-2) ... Setting up libxdmcp6:amd64 (1:1.1.2-3) ... Setting up liblapack3:amd64 (3.9.0-3+deb11u1) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/x86_64-linux-gnu/liblapack.so.3 (liblapack.so.3-x86_64-linux-gnu) in auto mode Setting up libxcb1:amd64 (1.14-3) ... Setting up libwebpdemux2:amd64 (0.6.1-2.1+deb11u2) ... Setting up libreadline8:amd64 (8.1-1) ... Setting up libaec-dev:amd64 (1.0.4-1) ... Setting up libldap-2.4-2:amd64 (2.4.57+dfsg-3+deb11u1) ... Setting up libcurl3-gnutls:amd64 (7.74.0-1.3+deb11u9) ... Setting up libcurl4-gnutls-dev:amd64 (7.74.0-1.3+deb11u9) ... Setting up ca-certificates (20210119) ... Updating certificates in /etc/ssl/certs... 129 added, 0 removed; done. Setting up libfreetype6:amd64 (2.10.4+dfsg-1+deb11u1) ... Setting up libgdbm-compat4:amd64 (1.19-2) ... Setting up libpbcopper-dev:amd64 (1.8.0+dfsg-2+b1) ... Setting up libperl5.32:amd64 (5.32.1-4+deb11u2) ... Setting up libhdf5-103-1:amd64 (1.10.6+repack-4+deb11u1) ... Setting up libhdf5-cpp-103-1:amd64 (1.10.6+repack-4+deb11u1) ... Setting up libc6-dev:amd64 (2.31-13+deb11u6) ... Setting up libpython3.9-stdlib:amd64 (3.9.2-1) ... Setting up libpython3-stdlib:amd64 (3.9.2-3) ... Setting up libhdf5-hl-100:amd64 (1.10.6+repack-4+deb11u1) ... Setting up libhts3:amd64 (1.11-4) ... Setting up libpbdata-dev (5.3.4+dfsg-3) ... Setting up perl (5.32.1-4+deb11u2) ... Setting up libhdf5-hl-cpp-100:amd64 (1.10.6+repack-4+deb11u1) ... Setting up libjpeg62-turbo-dev:amd64 (1:2.0.6-4) ... Setting up libhdf5-fortran-102:amd64 (1.10.6+repack-4+deb11u1) ... Setting up zlib1g-dev:amd64 (1:1.2.11.dfsg-2+deb11u2) ... Setting up libhdf5-hl-fortran-100:amd64 (1.10.6+repack-4+deb11u1) ... Setting up libpbbam1.6.0:amd64 (1.6.0+dfsg-2) ... Setting up mailcap (3.69) ... Setting up python3.9 (3.9.2-1) ... Setting up mime-support (3.66) ... Setting up libjpeg-dev:amd64 (1:2.0.6-4) ... Setting up libhts-dev:amd64 (1.11-4) ... Setting up python3 (3.9.2-3) ... Setting up libblasr5.3.4 (5.3.4+dfsg-3) ... Setting up python3-tz (2021.1-1) ... Setting up python3-six (1.16.0-2) ... Setting up python3-pil:amd64 (8.1.2+dfsg-0.3+deb11u1) ... Setting up python3-iso8601 (0.1.13-1) ... Setting up python3-certifi (2020.6.20-1) ... Setting up python3-avro (1.10.1+dfsg-1) ... Setting up libblasr-dev (5.3.4+dfsg-3) ... Setting up python3-reportlab-accel:amd64 (3.5.59-2) ... Setting up libhdf5-dev (1.10.6+repack-4+deb11u1) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/pkgconfig/hdf5-serial.pc to provide /usr/lib/x86_64-linux-gnu/pkgconfig/hdf5.pc (hdf5.pc) in auto mode Setting up python3-idna (2.10-1) ... Setting up python3-urllib3 (1.26.5-1~exp1) ... Setting up python3-reportlab (3.5.59-2) ... Setting up libpbbam-dev (1.6.0+dfsg-2) ... Setting up libpbihdf-dev (5.3.4+dfsg-3) ... Setting up python3-pkg-resources (52.0.0-4) ... Setting up libpbseq-dev (5.3.4+dfsg-3) ... Setting up python3-pysam (0.15.4+ds-3+b2) ... Setting up python3-chardet (4.0.0-1) ... Setting up python3-requests (2.25.1+dfsg-2) ... Setting up python3-numpy (1:1.19.5-1) ... Setting up python3-biopython (1.78+dfsg-4) ... Setting up python3-pbconsensuscore (1.1.1+dfsg-2+b3) ... Setting up python3-pbcore (1.7.1+git20200430.a127b1e+dfsg-1) ... Setting up python3-pbcommand (2.1.1+git20201023.cc0ed3d-1) ... Setting up smrtanalysis-dev (0~20210111) ... Processing triggers for libc-bin (2.31-13+deb11u6) ... Processing triggers for ca-certificates (20210119) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. 0m27.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'apt-get', '-y', 'install', 'smrtanalysis-dev=0~20210111'] 0m27.8s INFO: Running scripts post_install 0m27.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'tmp/scripts/post_install_exceptions'] 0m27.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'tmp/scripts/post_install_exceptions'] 0m27.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'tmp/scripts/post_install_log_alternatives'] 0m27.8s DUMP: Removing 'local diversion of /usr/bin/update-alternatives to /usr/bin/update-alternatives.orig' LOG-ALTERNATIVES: dpkg=python3: piuparts=smrtanalysis-dev=0~20210111: /usr/bin/update-alternatives --auto /usr/bin/python3 LOG-ALTERNATIVES: dpkg=libblas3: piuparts=smrtanalysis-dev=0~20210111: /usr/bin/update-alternatives --install /usr/lib/x86_64-linux-gnu/libblas.so.3 libblas.so.3-x86_64-linux-gnu /usr/lib/x86_64-linux-gnu/blas/libblas.so.3 10 LOG-ALTERNATIVES: dpkg=liblapack3: piuparts=smrtanalysis-dev=0~20210111: /usr/bin/update-alternatives --install /usr/lib/x86_64-linux-gnu/liblapack.so.3 liblapack.so.3-x86_64-linux-gnu /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3 10 LOG-ALTERNATIVES: dpkg=perl: piuparts=smrtanalysis-dev=0~20210111: /usr/bin/update-alternatives --remove rename /usr/bin/prename LOG-ALTERNATIVES: dpkg=mailcap: piuparts=smrtanalysis-dev=0~20210111: /usr/bin/update-alternatives --quiet --install /usr/bin/open open /usr/bin/run-mailcap 30 --slave /usr/share/man/man1/open.1.gz open.1.gz /usr/share/man/man1/run-mailcap.1.gz LOG-ALTERNATIVES: dpkg=libhdf5-dev: piuparts=smrtanalysis-dev=0~20210111: /usr/bin/update-alternatives --install /usr/lib/x86_64-linux-gnu/pkgconfig/hdf5.pc hdf5.pc /usr/lib/x86_64-linux-gnu/pkgconfig/hdf5-serial.pc 20 0m27.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'tmp/scripts/post_install_log_alternatives'] 0m27.8s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_'] 0m28.7s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_'] 0m30.2s ERROR: WARN: Broken symlinks: /usr/lib/python3/dist-packages/Bio/Entrez/DTDs/mathml2.dtd -> ../../../../../../share/xml/schema/w3c/mathml/dtd/mathml2.dtd (python3-biopython) 0m30.2s INFO: /bin converted to /usr/bin by /usr merge 0m30.2s INFO: /lib converted to /usr/lib by /usr merge 0m30.2s INFO: /lib/init converted to /usr/lib/init by /usr merge 0m30.2s INFO: /lib/lsb converted to /usr/lib/lsb by /usr merge 0m30.2s INFO: /lib/lsb/init-functions.d converted to /usr/lib/lsb/init-functions.d by /usr merge 0m30.2s INFO: /lib/systemd converted to /usr/lib/systemd by /usr merge 0m30.2s INFO: /lib/systemd/system converted to /usr/lib/systemd/system by /usr merge 0m30.2s INFO: /lib/terminfo converted to /usr/lib/terminfo by /usr merge 0m30.2s INFO: /lib/terminfo/E converted to /usr/lib/terminfo/E by /usr merge 0m30.2s INFO: /lib/terminfo/a converted to /usr/lib/terminfo/a by /usr merge 0m30.2s INFO: /lib/terminfo/c converted to /usr/lib/terminfo/c by /usr merge 0m30.2s INFO: /lib/terminfo/d converted to /usr/lib/terminfo/d by /usr merge 0m30.2s INFO: /lib/terminfo/h converted to /usr/lib/terminfo/h by /usr merge 0m30.2s INFO: /lib/terminfo/l converted to /usr/lib/terminfo/l by /usr merge 0m30.2s INFO: /lib/terminfo/m converted to /usr/lib/terminfo/m by /usr merge 0m30.2s INFO: /lib/terminfo/p converted to /usr/lib/terminfo/p by /usr merge 0m30.2s INFO: /lib/terminfo/r converted to /usr/lib/terminfo/r by /usr merge 0m30.2s INFO: /lib/terminfo/s converted to /usr/lib/terminfo/s by /usr merge 0m30.2s INFO: /lib/terminfo/t converted to /usr/lib/terminfo/t by /usr merge 0m30.2s INFO: /lib/terminfo/v converted to /usr/lib/terminfo/v by /usr merge 0m30.2s INFO: /lib/terminfo/w converted to /usr/lib/terminfo/w by /usr merge 0m30.2s INFO: /lib/terminfo/x converted to /usr/lib/terminfo/x by /usr merge 0m30.2s INFO: /lib/udev converted to /usr/lib/udev by /usr merge 0m30.2s INFO: /lib/udev/rules.d converted to /usr/lib/udev/rules.d by /usr merge 0m30.2s INFO: /lib/x86_64-linux-gnu converted to /usr/lib/x86_64-linux-gnu by /usr merge 0m30.2s INFO: /lib/x86_64-linux-gnu/security converted to /usr/lib/x86_64-linux-gnu/security by /usr merge 0m30.2s INFO: /lib64 converted to /usr/lib64 by /usr merge 0m30.2s INFO: /sbin converted to /usr/sbin by /usr merge 0m30.9s DEBUG: Starting command: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', '-ac', '--ignore-obsolete'] 0m32.4s DEBUG: Command ok: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', '-ac', '--ignore-obsolete'] 0m32.4s DEBUG: Starting command: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 0m32.4s DUMP: 0.15.6 0m32.4s DEBUG: Command ok: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 0m32.4s INFO: Running adequate version 0.15.6 now. 0m32.4s DEBUG: Starting command: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'smrtanalysis-dev'] 0m32.5s DEBUG: Command ok: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'smrtanalysis-dev'] 0m32.5s INFO: Running scripts pre_remove 0m32.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 0m32.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 0m32.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 0m32.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 0m32.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 0m35.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 0m35.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 0m35.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 0m35.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 0m35.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 0m35.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'tmp/scripts/pre_remove_exceptions'] 0m35.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'tmp/scripts/pre_remove_exceptions'] 0m35.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m35.8s DUMP: install ok installed adduser adduser 3.118+deb11u1 install ok installed apt apt 2.2.4 install ok installed base-files base-files 11.1+deb11u8 install ok installed base-passwd base-passwd 3.5.51 install ok installed bash bash 5.1-2+deb11u1 install ok installed bsdutils bsdutils 1:2.36.1-8+deb11u1 install ok installed ca-certificates ca-certificates 20210119 install ok installed coreutils coreutils 8.32-4+b1 install ok installed dash dash 0.5.11+git20200708+dd9ef66-5 install ok installed debconf debconf 1.5.77 install ok installed debian-archive-keyring debian-archive-keyring 2021.1.1+deb11u1 install ok installed debianutils debianutils 4.11.2 install ok installed diffutils diffutils 1:3.7-5 install ok installed dpkg dpkg 1.20.13 install ok installed e2fsprogs e2fsprogs 1.46.2-2 install ok installed findutils findutils 4.8.0-1 install ok installed gcc-10-base:amd64 gcc-10-base 10.2.1-6 install ok installed gcc-9-base:amd64 gcc-9-base 9.3.0-22 install ok installed gpgv gpgv 2.2.27-2+deb11u2 install ok installed grep grep 3.6-1+deb11u1 install ok installed gzip gzip 1.10-4+deb11u1 install ok installed hdf5-helpers hdf5-helpers 1.10.6+repack-4+deb11u1 install ok installed hostname hostname 3.23 install ok installed init-system-helpers init-system-helpers 1.60 install ok installed libacl1:amd64 libacl1 2.2.53-10 install ok installed libaec-dev:amd64 libaec-dev 1.0.4-1 install ok installed libaec0:amd64 libaec0 1.0.4-1 install ok installed libapt-pkg6.0:amd64 libapt-pkg6.0 2.2.4 install ok installed libattr1:amd64 libattr1 1:2.4.48-6 install ok installed libaudit-common libaudit-common 1:3.0-2 install ok installed libaudit1:amd64 libaudit1 1:3.0-2 install ok installed libblas3:amd64 libblas3 3.9.0-3+deb11u1 install ok installed libblasr-dev libblasr-dev 5.3.4+dfsg-3 install ok installed libblasr5.3.4 libblasr5.3.4 5.3.4+dfsg-3 install ok installed libblkid1:amd64 libblkid1 2.36.1-8+deb11u1 install ok installed libbrotli1:amd64 libbrotli1 1.0.9-2+b2 install ok installed libbsd0:amd64 libbsd0 0.11.3-1+deb11u1 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.8-4 install ok installed libc-bin libc-bin 2.31-13+deb11u6 install ok installed libc-dev-bin libc-dev-bin 2.31-13+deb11u6 install ok installed libc6:amd64 libc6 2.31-13+deb11u6 install ok installed libc6-dev:amd64 libc6-dev 2.31-13+deb11u6 install ok installed libcap-ng0:amd64 libcap-ng0 0.7.9-2.2+b1 install ok installed libcom-err2:amd64 libcom-err2 1.46.2-2 install ok installed libcrypt-dev:amd64 libcrypt-dev 1:4.4.18-4 install ok installed libcrypt1:amd64 libcrypt1 1:4.4.18-4 install ok installed libcurl3-gnutls:amd64 libcurl3-gnutls 7.74.0-1.3+deb11u9 install ok installed libcurl4-gnutls-dev:amd64 libcurl4-gnutls-dev 7.74.0-1.3+deb11u9 install ok installed libdb5.3:amd64 libdb5.3 5.3.28+dfsg1-0.8 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.260 install ok installed libdeflate-dev:amd64 libdeflate-dev 1.7-1 install ok installed libdeflate0:amd64 libdeflate0 1.7-1 install ok installed libexpat1:amd64 libexpat1 2.2.10-2+deb11u5 install ok installed libext2fs2:amd64 libext2fs2 1.46.2-2 install ok installed libffi7:amd64 libffi7 3.3-6 install ok installed libfreetype6:amd64 libfreetype6 2.10.4+dfsg-1+deb11u1 install ok installed libgcc-s1:amd64 libgcc-s1 10.2.1-6 install ok installed libgcrypt20:amd64 libgcrypt20 1.8.7-6 install ok installed libgdbm-compat4:amd64 libgdbm-compat4 1.19-2 install ok installed libgdbm6:amd64 libgdbm6 1.19-2 install ok installed libgfortran5:amd64 libgfortran5 10.2.1-6 install ok installed libgmp10:amd64 libgmp10 2:6.2.1+dfsg-1+deb11u1 install ok installed libgnutls30:amd64 libgnutls30 3.7.1-5+deb11u3 install ok installed libgpg-error0:amd64 libgpg-error0 1.38-2 install ok installed libgssapi-krb5-2:amd64 libgssapi-krb5-2 1.18.3-6+deb11u4 install ok installed libhdf5-103-1:amd64 libhdf5-103-1 1.10.6+repack-4+deb11u1 install ok installed libhdf5-cpp-103-1:amd64 libhdf5-cpp-103-1 1.10.6+repack-4+deb11u1 install ok installed libhdf5-dev libhdf5-dev 1.10.6+repack-4+deb11u1 install ok installed libhdf5-fortran-102:amd64 libhdf5-fortran-102 1.10.6+repack-4+deb11u1 install ok installed libhdf5-hl-100:amd64 libhdf5-hl-100 1.10.6+repack-4+deb11u1 install ok installed libhdf5-hl-cpp-100:amd64 libhdf5-hl-cpp-100 1.10.6+repack-4+deb11u1 install ok installed libhdf5-hl-fortran-100:amd64 libhdf5-hl-fortran-100 1.10.6+repack-4+deb11u1 install ok installed libhogweed6:amd64 libhogweed6 3.7.3-1 install ok installed libhts-dev:amd64 libhts-dev 1.11-4 install ok installed libhts3:amd64 libhts3 1.11-4 install ok installed libidn2-0:amd64 libidn2-0 2.3.0-5 install ok installed libimagequant0:amd64 libimagequant0 2.12.2-1.1 install ok installed libjbig0:amd64 libjbig0 2.1-3.1+b2 install ok installed libjpeg-dev:amd64 libjpeg-dev 1:2.0.6-4 install ok installed libjpeg62-turbo:amd64 libjpeg62-turbo 1:2.0.6-4 install ok installed libjpeg62-turbo-dev:amd64 libjpeg62-turbo-dev 1:2.0.6-4 install ok installed libk5crypto3:amd64 libk5crypto3 1.18.3-6+deb11u4 install ok installed libkeyutils1:amd64 libkeyutils1 1.6.1-2 install ok installed libkrb5-3:amd64 libkrb5-3 1.18.3-6+deb11u4 install ok installed libkrb5support0:amd64 libkrb5support0 1.18.3-6+deb11u4 install ok installed liblapack3:amd64 liblapack3 3.9.0-3+deb11u1 install ok installed liblcms2-2:amd64 liblcms2-2 2.12~rc1-2 install ok installed libldap-2.4-2:amd64 libldap-2.4-2 2.4.57+dfsg-3+deb11u1 install ok installed liblz4-1:amd64 liblz4-1 1.9.3-2 install ok installed liblzma-dev:amd64 liblzma-dev 5.2.5-2.1~deb11u1 install ok installed liblzma5:amd64 liblzma5 5.2.5-2.1~deb11u1 install ok installed libmd0:amd64 libmd0 1.0.3-3 install ok installed libmount1:amd64 libmount1 2.36.1-8+deb11u1 install ok installed libmpdec3:amd64 libmpdec3 2.5.1-1 install ok installed libncursesw6:amd64 libncursesw6 6.2+20201114-2+deb11u2 install ok installed libnettle8:amd64 libnettle8 3.7.3-1 install ok installed libnghttp2-14:amd64 libnghttp2-14 1.43.0-1 install ok installed libnsl-dev:amd64 libnsl-dev 1.3.0-2 install ok installed libnsl2:amd64 libnsl2 1.3.0-2 install ok installed libp11-kit0:amd64 libp11-kit0 0.23.22-1 install ok installed libpam-modules:amd64 libpam-modules 1.4.0-9+deb11u1 install ok installed libpam-modules-bin libpam-modules-bin 1.4.0-9+deb11u1 install ok installed libpam-runtime libpam-runtime 1.4.0-9+deb11u1 install ok installed libpam0g:amd64 libpam0g 1.4.0-9+deb11u1 install ok installed libpbbam-dev libpbbam-dev 1.6.0+dfsg-2 install ok installed libpbbam1.6.0:amd64 libpbbam1.6.0 1.6.0+dfsg-2 install ok installed libpbcopper-dev:amd64 libpbcopper-dev 1.8.0+dfsg-2+b1 install ok installed libpbcopper1.8.0:amd64 libpbcopper1.8.0 1.8.0+dfsg-2+b1 install ok installed libpbdata-dev libpbdata-dev 5.3.4+dfsg-3 install ok installed libpbihdf-dev libpbihdf-dev 5.3.4+dfsg-3 install ok installed libpbseq-dev libpbseq-dev 5.3.4+dfsg-3 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.36-2+deb11u1 install ok installed libpcre3:amd64 libpcre3 2:8.39-13 install ok installed libperl5.32:amd64 libperl5.32 5.32.1-4+deb11u2 install ok installed libpng16-16:amd64 libpng16-16 1.6.37-3 install ok installed libpsl5:amd64 libpsl5 0.21.0-1.2 install ok installed libpython3-stdlib:amd64 libpython3-stdlib 3.9.2-3 install ok installed libpython3.9-minimal:amd64 libpython3.9-minimal 3.9.2-1 install ok installed libpython3.9-stdlib:amd64 libpython3.9-stdlib 3.9.2-1 install ok installed libquadmath0:amd64 libquadmath0 10.2.1-6 install ok installed libreadline8:amd64 libreadline8 8.1-1 install ok installed librtmp1:amd64 librtmp1 2.4+20151223.gitfa8646d.1-2+b2 install ok installed libsasl2-2:amd64 libsasl2-2 2.1.27+dfsg-2.1+deb11u1 install ok installed libsasl2-modules-db:amd64 libsasl2-modules-db 2.1.27+dfsg-2.1+deb11u1 install ok installed libseccomp2:amd64 libseccomp2 2.5.1-1+deb11u1 install ok installed libselinux1:amd64 libselinux1 3.1-3 install ok installed libsemanage-common libsemanage-common 3.1-1 install ok installed libsemanage1:amd64 libsemanage1 3.1-1+b2 install ok installed libsepol1:amd64 libsepol1 3.1-1 install ok installed libsmartcols1:amd64 libsmartcols1 2.36.1-8+deb11u1 install ok installed libsqlite3-0:amd64 libsqlite3-0 3.34.1-3 install ok installed libss2:amd64 libss2 1.46.2-2 install ok installed libssh2-1:amd64 libssh2-1 1.9.0-2 install ok installed libssl-dev:amd64 libssl-dev 1.1.1w-0+deb11u1 install ok installed libssl1.1:amd64 libssl1.1 1.1.1w-0+deb11u1 install ok installed libstdc++6:amd64 libstdc++6 10.2.1-6 install ok installed libsystemd0:amd64 libsystemd0 247.3-7+deb11u4 install ok installed libsz2:amd64 libsz2 1.0.4-1 install ok installed libtasn1-6:amd64 libtasn1-6 4.16.0-2+deb11u1 install ok installed libtiff5:amd64 libtiff5 4.2.0-1+deb11u4 install ok installed libtinfo6:amd64 libtinfo6 6.2+20201114-2+deb11u2 install ok installed libtirpc-common libtirpc-common 1.3.1-1+deb11u1 install ok installed libtirpc-dev:amd64 libtirpc-dev 1.3.1-1+deb11u1 install ok installed libtirpc3:amd64 libtirpc3 1.3.1-1+deb11u1 install ok installed libudev1:amd64 libudev1 247.3-7+deb11u4 install ok installed libunistring2:amd64 libunistring2 0.9.10-4 install ok installed libuuid1:amd64 libuuid1 2.36.1-8+deb11u1 install ok installed libwebp6:amd64 libwebp6 0.6.1-2.1+deb11u2 install ok installed libwebpdemux2:amd64 libwebpdemux2 0.6.1-2.1+deb11u2 install ok installed libwebpmux3:amd64 libwebpmux3 0.6.1-2.1+deb11u2 install ok installed libxau6:amd64 libxau6 1:1.0.9-1 install ok installed libxcb1:amd64 libxcb1 1.14-3 install ok installed libxdmcp6:amd64 libxdmcp6 1:1.1.2-3 install ok installed libxxhash0:amd64 libxxhash0 0.8.0-2 install ok installed libzstd1:amd64 libzstd1 1.4.8+dfsg-2.1 install ok installed linux-libc-dev:amd64 linux-libc-dev 5.10.197-1 install ok installed login login 1:4.8.1-1 install ok installed logsave logsave 1.46.2-2 install ok installed lsb-base lsb-base 11.1.0 install ok installed mailcap mailcap 3.69 install ok installed mawk mawk 1.3.4.20200120-2 install ok installed media-types media-types 4.0.0 install ok installed mime-support mime-support 3.66 install ok installed mount mount 2.36.1-8+deb11u1 install ok installed ncurses-base ncurses-base 6.2+20201114-2+deb11u2 install ok installed ncurses-bin ncurses-bin 6.2+20201114-2+deb11u2 install ok installed openssl openssl 1.1.1w-0+deb11u1 install ok installed passwd passwd 1:4.8.1-1 install ok installed perl perl 5.32.1-4+deb11u2 install ok installed perl-base perl-base 5.32.1-4+deb11u2 install ok installed perl-modules-5.32 perl-modules-5.32 5.32.1-4+deb11u2 install ok installed python3 python3 3.9.2-3 install ok installed python3-avro python3-avro 1.10.1+dfsg-1 install ok installed python3-biopython python3-biopython 1.78+dfsg-4 install ok installed python3-certifi python3-certifi 2020.6.20-1 install ok installed python3-chardet python3-chardet 4.0.0-1 install ok installed python3-idna python3-idna 2.10-1 install ok installed python3-iso8601 python3-iso8601 0.1.13-1 install ok installed python3-minimal python3-minimal 3.9.2-3 install ok installed python3-numpy python3-numpy 1:1.19.5-1 install ok installed python3-pbcommand python3-pbcommand 2.1.1+git20201023.cc0ed3d-1 install ok installed python3-pbconsensuscore python3-pbconsensuscore 1.1.1+dfsg-2+b3 install ok installed python3-pbcore python3-pbcore 1.7.1+git20200430.a127b1e+dfsg-1 install ok installed python3-pil:amd64 python3-pil 8.1.2+dfsg-0.3+deb11u1 install ok installed python3-pkg-resources python3-pkg-resources 52.0.0-4 install ok installed python3-pysam python3-pysam 0.15.4+ds-3+b2 install ok installed python3-reportlab python3-reportlab 3.5.59-2 install ok installed python3-reportlab-accel:amd64 python3-reportlab-accel 3.5.59-2 install ok installed python3-requests python3-requests 2.25.1+dfsg-2 install ok installed python3-six python3-six 1.16.0-2 install ok installed python3-tz python3-tz 2021.1-1 install ok installed python3-urllib3 python3-urllib3 1.26.5-1~exp1 install ok installed python3.9 python3.9 3.9.2-1 install ok installed python3.9-minimal python3.9-minimal 3.9.2-1 install ok installed readline-common readline-common 8.1-1 install ok installed sed sed 4.7-1 install ok installed smrtanalysis-dev smrtanalysis-dev 0~20210111 install ok installed sysvinit-utils sysvinit-utils 2.96-7+deb11u1 install ok installed tar tar 1.34+dfsg-1 install ok installed tzdata tzdata 2021a-1+deb11u10 install ok installed util-linux util-linux 2.36.1-8+deb11u1 install ok installed zlib1g:amd64 zlib1g 1:1.2.11.dfsg-2+deb11u2 install ok installed zlib1g-dev:amd64 zlib1g-dev 1:1.2.11.dfsg-2+deb11u2 0m35.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m35.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'apt-get', 'remove', 'ca-certificates', 'hdf5-helpers', 'libaec-dev:amd64', 'libaec0:amd64', 'libblas3:amd64', 'libblasr-dev', 'libblasr5.3.4', 'libbrotli1:amd64', 'libbsd0:amd64', 'libc-dev-bin', 'libc6-dev:amd64', 'libcrypt-dev:amd64', 'libcurl3-gnutls:amd64', 'libcurl4-gnutls-dev:amd64', 'libdeflate-dev:amd64', 'libdeflate0:amd64', 'libexpat1:amd64', 'libfreetype6:amd64', 'libgdbm-compat4:amd64', 'libgdbm6:amd64', 'libgfortran5:amd64', 'libhdf5-103-1:amd64', 'libhdf5-cpp-103-1:amd64', 'libhdf5-dev', 'libhdf5-fortran-102:amd64', 'libhdf5-hl-100:amd64', 'libhdf5-hl-cpp-100:amd64', 'libhdf5-hl-fortran-100:amd64', 'libhts-dev:amd64', 'libhts3:amd64', 'libimagequant0:amd64', 'libjbig0:amd64', 'libjpeg-dev:amd64', 'libjpeg62-turbo:amd64', 'libjpeg62-turbo-dev:amd64', 'liblapack3:amd64', 'liblcms2-2:amd64', 'libldap-2.4-2:amd64', 'liblzma-dev:amd64', 'libmd0:amd64', 'libmpdec3:amd64', 'libncursesw6:amd64', 'libnghttp2-14:amd64', 'libnsl-dev:amd64', 'libpbbam-dev', 'libpbbam1.6.0:amd64', 'libpbcopper-dev:amd64', 'libpbcopper1.8.0:amd64', 'libpbdata-dev', 'libpbihdf-dev', 'libpbseq-dev', 'libperl5.32:amd64', 'libpng16-16:amd64', 'libpsl5:amd64', 'libpython3-stdlib:amd64', 'libpython3.9-minimal:amd64', 'libpython3.9-stdlib:amd64', 'libquadmath0:amd64', 'libreadline8:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsqlite3-0:amd64', 'libssh2-1:amd64', 'libssl-dev:amd64', 'libsz2:amd64', 'libtiff5:amd64', 'libtirpc-dev:amd64', 'libwebp6:amd64', 'libwebpdemux2:amd64', 'libwebpmux3:amd64', 'libxau6:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'linux-libc-dev:amd64', 'mailcap', 'media-types', 'mime-support', 'openssl', 'perl', 'perl-modules-5.32', 'python3', 'python3-avro', 'python3-biopython', 'python3-certifi', 'python3-chardet', 'python3-idna', 'python3-iso8601', 'python3-minimal', 'python3-numpy', 'python3-pbcommand', 'python3-pbconsensuscore', 'python3-pbcore', 'python3-pil:amd64', 'python3-pkg-resources', 'python3-pysam', 'python3-reportlab', 'python3-reportlab-accel:amd64', 'python3-requests', 'python3-six', 'python3-tz', 'python3-urllib3', 'python3.9', 'python3.9-minimal', 'readline-common', 'zlib1g-dev:amd64', 'smrtanalysis-dev'] 0m38.9s DUMP: Reading package lists... Building dependency tree... Reading state information... The following packages will be REMOVED: ca-certificates hdf5-helpers libaec-dev libaec0 libblas3 libblasr-dev libblasr5.3.4 libbrotli1 libbsd0 libc-dev-bin libc6-dev libcrypt-dev libcurl3-gnutls libcurl4-gnutls-dev libdeflate-dev libdeflate0 libexpat1 libfreetype6 libgdbm-compat4 libgdbm6 libgfortran5 libhdf5-103-1 libhdf5-cpp-103-1 libhdf5-dev libhdf5-fortran-102 libhdf5-hl-100 libhdf5-hl-cpp-100 libhdf5-hl-fortran-100 libhts-dev libhts3 libimagequant0 libjbig0 libjpeg-dev libjpeg62-turbo libjpeg62-turbo-dev liblapack3 liblcms2-2 libldap-2.4-2 liblzma-dev libmd0 libmpdec3 libncursesw6 libnghttp2-14 libnsl-dev libpbbam-dev libpbbam1.6.0 libpbcopper-dev libpbcopper1.8.0 libpbdata-dev libpbihdf-dev libpbseq-dev libperl5.32 libpng16-16 libpsl5 libpython3-stdlib libpython3.9-minimal libpython3.9-stdlib libquadmath0 libreadline8 librtmp1 libsasl2-2 libsasl2-modules-db libsqlite3-0 libssh2-1 libssl-dev libsz2 libtiff5 libtirpc-dev libwebp6 libwebpdemux2 libwebpmux3 libxau6 libxcb1 libxdmcp6 linux-libc-dev mailcap media-types mime-support openssl perl perl-modules-5.32 python3 python3-avro python3-biopython python3-certifi python3-chardet python3-idna python3-iso8601 python3-minimal python3-numpy python3-pbcommand python3-pbconsensuscore python3-pbcore python3-pil python3-pkg-resources python3-pysam python3-reportlab python3-reportlab-accel python3-requests python3-six python3-tz python3-urllib3 python3.9 python3.9-minimal readline-common smrtanalysis-dev zlib1g-dev 0 upgraded, 0 newly installed, 107 to remove and 0 not upgraded. After this operation, 225 MB disk space will be freed. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 15175 files and directories currently installed.) Removing smrtanalysis-dev (0~20210111) ... Removing python3-pbcommand (2.1.1+git20201023.cc0ed3d-1) ... Removing python3-requests (2.25.1+dfsg-2) ... Removing python3-certifi (2020.6.20-1) ... Removing ca-certificates (20210119) ... Removing dangling symlinks from /etc/ssl/certs... done. Removing libpbseq-dev (5.3.4+dfsg-3) ... Removing libpbihdf-dev (5.3.4+dfsg-3) ... Removing libhdf5-dev (1.10.6+repack-4+deb11u1) ... Removing hdf5-helpers (1.10.6+repack-4+deb11u1) ... Removing libaec-dev:amd64 (1.0.4-1) ... Removing libblasr-dev (5.3.4+dfsg-3) ... Removing libblasr5.3.4 (5.3.4+dfsg-3) ... Removing libhdf5-hl-fortran-100:amd64 (1.10.6+repack-4+deb11u1) ... Removing python3-pbcore (1.7.1+git20200430.a127b1e+dfsg-1) ... Removing python3-biopython (1.78+dfsg-4) ... Removing python3-pbconsensuscore (1.1.1+dfsg-2+b3) ... Removing python3-numpy (1:1.19.5-1) ... Removing liblapack3:amd64 (3.9.0-3+deb11u1) ... Removing libblas3:amd64 (3.9.0-3+deb11u1) ... Removing python3-reportlab (3.5.59-2) ... Removing python3-pil:amd64 (8.1.2+dfsg-0.3+deb11u1) ... Removing libfreetype6:amd64 (2.10.4+dfsg-1+deb11u1) ... Removing libpbbam-dev (1.6.0+dfsg-2) ... Removing libhts-dev:amd64 (1.11-4) ... Removing libxcb1:amd64 (1.14-3) ... Removing libxdmcp6:amd64 (1:1.1.2-3) ... Removing libbsd0:amd64 (0.11.3-1+deb11u1) ... Removing zlib1g-dev:amd64 (1:1.2.11.dfsg-2+deb11u2) ... Removing libjpeg-dev:amd64 (1:2.0.6-4) ... Removing libjpeg62-turbo-dev:amd64 (1:2.0.6-4) ... Removing libc6-dev:amd64 (2.31-13+deb11u6) ... Removing libc-dev-bin (2.31-13+deb11u6) ... Removing libcrypt-dev:amd64 (1:4.4.18-4) ... Removing python3-pysam (0.15.4+ds-3+b2) ... Removing libcurl4-gnutls-dev:amd64 (7.74.0-1.3+deb11u9) ... Removing libdeflate-dev:amd64 (1.7-1) ... Removing libtiff5:amd64 (4.2.0-1+deb11u4) ... Removing python3-reportlab-accel:amd64 (3.5.59-2) ... Removing python3-urllib3 (1.26.5-1~exp1) ... Removing python3-six (1.16.0-2) ... Removing python3-chardet (4.0.0-1) ... Removing python3-pkg-resources (52.0.0-4) ... Removing mime-support (3.66) ... Removing mailcap (3.69) ... Removing perl (5.32.1-4+deb11u2) ... Removing libperl5.32:amd64 (5.32.1-4+deb11u2) ... Removing libgdbm-compat4:amd64 (1.19-2) ... Removing libgdbm6:amd64 (1.19-2) ... Removing libhdf5-fortran-102:amd64 (1.10.6+repack-4+deb11u1) ... Removing libgfortran5:amd64 (10.2.1-6) ... Removing libhdf5-cpp-103-1:amd64 (1.10.6+repack-4+deb11u1) ... Removing libhdf5-hl-cpp-100:amd64 (1.10.6+repack-4+deb11u1) ... Removing libimagequant0:amd64 (2.12.2-1.1) ... Removing libjbig0:amd64 (2.1-3.1+b2) ... Removing libjpeg62-turbo:amd64 (1:2.0.6-4) ... Removing liblcms2-2:amd64 (2.12~rc1-2) ... Removing liblzma-dev:amd64 (5.2.5-2.1~deb11u1) ... Removing libmd0:amd64 (1.0.3-3) ... Removing libnsl-dev:amd64 (1.3.0-2) ... Removing libpbbam1.6.0:amd64 (1.6.0+dfsg-2) ... Removing libpbdata-dev (5.3.4+dfsg-3) ... Removing libpbcopper-dev:amd64 (1.8.0+dfsg-2+b1) ... Removing libpbcopper1.8.0:amd64 (1.8.0+dfsg-2+b1) ... Removing libpng16-16:amd64 (1.6.37-3) ... Removing libquadmath0:amd64 (10.2.1-6) ... Removing libssl-dev:amd64 (1.1.1w-0+deb11u1) ... Removing libtirpc-dev:amd64 (1.3.1-1+deb11u1) ... Removing libwebpmux3:amd64 (0.6.1-2.1+deb11u2) ... Removing libwebpdemux2:amd64 (0.6.1-2.1+deb11u2) ... Removing libwebp6:amd64 (0.6.1-2.1+deb11u2) ... Removing libxau6:amd64 (1:1.0.9-1) ... Removing linux-libc-dev:amd64 (5.10.197-1) ... Removing openssl (1.1.1w-0+deb11u1) ... Removing perl-modules-5.32 (5.32.1-4+deb11u2) ... Removing python3-avro (1.10.1+dfsg-1) ... Removing python3-idna (2.10-1) ... Removing python3-iso8601 (0.1.13-1) ... Removing python3-tz (2021.1-1) ... Removing libhdf5-hl-100:amd64 (1.10.6+repack-4+deb11u1) ... Removing libhdf5-103-1:amd64 (1.10.6+repack-4+deb11u1) ... Removing libsz2:amd64 (1.0.4-1) ... Removing libaec0:amd64 (1.0.4-1) ... Removing libhts3:amd64 (1.11-4) ... Removing libcurl3-gnutls:amd64 (7.74.0-1.3+deb11u9) ... Removing libbrotli1:amd64 (1.0.9-2+b2) ... Removing libdeflate0:amd64 (1.7-1) ... Removing python3 (3.9.2-3) ... Removing python3-minimal (3.9.2-3) ... Removing python3.9 (3.9.2-1) ... Removing python3.9-minimal (3.9.2-1) ... Removing libexpat1:amd64 (2.2.10-2+deb11u5) ... Removing libpython3-stdlib:amd64 (3.9.2-3) ... Removing libpython3.9-stdlib:amd64 (3.9.2-1) ... find: '/usr/lib/python3': No such file or directory Removing libldap-2.4-2:amd64 (2.4.57+dfsg-3+deb11u1) ... Removing libmpdec3:amd64 (2.5.1-1) ... Removing libncursesw6:amd64 (6.2+20201114-2+deb11u2) ... Removing libnghttp2-14:amd64 (1.43.0-1) ... Removing libpsl5:amd64 (0.21.0-1.2) ... Removing libpython3.9-minimal:amd64 (3.9.2-1) ... find: '/usr/lib/python3': No such file or directory Removing libreadline8:amd64 (8.1-1) ... Removing librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b2) ... Removing libsasl2-2:amd64 (2.1.27+dfsg-2.1+deb11u1) ... Removing libsasl2-modules-db:amd64 (2.1.27+dfsg-2.1+deb11u1) ... Removing libsqlite3-0:amd64 (3.34.1-3) ... Removing libssh2-1:amd64 (1.9.0-2) ... Removing media-types (4.0.0) ... Removing readline-common (8.1-1) ... Processing triggers for libc-bin (2.31-13+deb11u6) ... 0m38.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'apt-get', 'remove', 'ca-certificates', 'hdf5-helpers', 'libaec-dev:amd64', 'libaec0:amd64', 'libblas3:amd64', 'libblasr-dev', 'libblasr5.3.4', 'libbrotli1:amd64', 'libbsd0:amd64', 'libc-dev-bin', 'libc6-dev:amd64', 'libcrypt-dev:amd64', 'libcurl3-gnutls:amd64', 'libcurl4-gnutls-dev:amd64', 'libdeflate-dev:amd64', 'libdeflate0:amd64', 'libexpat1:amd64', 'libfreetype6:amd64', 'libgdbm-compat4:amd64', 'libgdbm6:amd64', 'libgfortran5:amd64', 'libhdf5-103-1:amd64', 'libhdf5-cpp-103-1:amd64', 'libhdf5-dev', 'libhdf5-fortran-102:amd64', 'libhdf5-hl-100:amd64', 'libhdf5-hl-cpp-100:amd64', 'libhdf5-hl-fortran-100:amd64', 'libhts-dev:amd64', 'libhts3:amd64', 'libimagequant0:amd64', 'libjbig0:amd64', 'libjpeg-dev:amd64', 'libjpeg62-turbo:amd64', 'libjpeg62-turbo-dev:amd64', 'liblapack3:amd64', 'liblcms2-2:amd64', 'libldap-2.4-2:amd64', 'liblzma-dev:amd64', 'libmd0:amd64', 'libmpdec3:amd64', 'libncursesw6:amd64', 'libnghttp2-14:amd64', 'libnsl-dev:amd64', 'libpbbam-dev', 'libpbbam1.6.0:amd64', 'libpbcopper-dev:amd64', 'libpbcopper1.8.0:amd64', 'libpbdata-dev', 'libpbihdf-dev', 'libpbseq-dev', 'libperl5.32:amd64', 'libpng16-16:amd64', 'libpsl5:amd64', 'libpython3-stdlib:amd64', 'libpython3.9-minimal:amd64', 'libpython3.9-stdlib:amd64', 'libquadmath0:amd64', 'libreadline8:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsqlite3-0:amd64', 'libssh2-1:amd64', 'libssl-dev:amd64', 'libsz2:amd64', 'libtiff5:amd64', 'libtirpc-dev:amd64', 'libwebp6:amd64', 'libwebpdemux2:amd64', 'libwebpmux3:amd64', 'libxau6:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'linux-libc-dev:amd64', 'mailcap', 'media-types', 'mime-support', 'openssl', 'perl', 'perl-modules-5.32', 'python3', 'python3-avro', 'python3-biopython', 'python3-certifi', 'python3-chardet', 'python3-idna', 'python3-iso8601', 'python3-minimal', 'python3-numpy', 'python3-pbcommand', 'python3-pbconsensuscore', 'python3-pbcore', 'python3-pil:amd64', 'python3-pkg-resources', 'python3-pysam', 'python3-reportlab', 'python3-reportlab-accel:amd64', 'python3-requests', 'python3-six', 'python3-tz', 'python3-urllib3', 'python3.9', 'python3.9-minimal', 'readline-common', 'zlib1g-dev:amd64', 'smrtanalysis-dev'] 0m38.9s INFO: Running scripts post_remove 0m38.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'tmp/scripts/post_remove_exceptions'] 0m38.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'tmp/scripts/post_remove_exceptions'] 0m38.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'dpkg', '--purge', 'ca-certificates', 'hdf5-helpers', 'libaec-dev:amd64', 'libaec0:amd64', 'libblas3:amd64', 'libblasr-dev', 'libblasr5.3.4', 'libbrotli1:amd64', 'libbsd0:amd64', 'libc-dev-bin', 'libc6-dev:amd64', 'libcrypt-dev:amd64', 'libcurl3-gnutls:amd64', 'libcurl4-gnutls-dev:amd64', 'libdeflate-dev:amd64', 'libdeflate0:amd64', 'libexpat1:amd64', 'libfreetype6:amd64', 'libgdbm-compat4:amd64', 'libgdbm6:amd64', 'libgfortran5:amd64', 'libhdf5-103-1:amd64', 'libhdf5-cpp-103-1:amd64', 'libhdf5-dev', 'libhdf5-fortran-102:amd64', 'libhdf5-hl-100:amd64', 'libhdf5-hl-cpp-100:amd64', 'libhdf5-hl-fortran-100:amd64', 'libhts-dev:amd64', 'libhts3:amd64', 'libimagequant0:amd64', 'libjbig0:amd64', 'libjpeg-dev:amd64', 'libjpeg62-turbo:amd64', 'libjpeg62-turbo-dev:amd64', 'liblapack3:amd64', 'liblcms2-2:amd64', 'libldap-2.4-2:amd64', 'liblzma-dev:amd64', 'libmd0:amd64', 'libmpdec3:amd64', 'libncursesw6:amd64', 'libnghttp2-14:amd64', 'libnsl-dev:amd64', 'libpbbam-dev', 'libpbbam1.6.0:amd64', 'libpbcopper-dev:amd64', 'libpbcopper1.8.0:amd64', 'libpbdata-dev', 'libpbihdf-dev', 'libpbseq-dev', 'libperl5.32:amd64', 'libpng16-16:amd64', 'libpsl5:amd64', 'libpython3-stdlib:amd64', 'libpython3.9-minimal:amd64', 'libpython3.9-stdlib:amd64', 'libquadmath0:amd64', 'libreadline8:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsqlite3-0:amd64', 'libssh2-1:amd64', 'libssl-dev:amd64', 'libsz2:amd64', 'libtiff5:amd64', 'libtirpc-dev:amd64', 'libwebp6:amd64', 'libwebpdemux2:amd64', 'libwebpmux3:amd64', 'libxau6:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'linux-libc-dev:amd64', 'mailcap', 'media-types', 'mime-support', 'openssl', 'perl', 'perl-modules-5.32', 'python3', 'python3-avro', 'python3-biopython', 'python3-certifi', 'python3-chardet', 'python3-idna', 'python3-iso8601', 'python3-minimal', 'python3-numpy', 'python3-pbcommand', 'python3-pbconsensuscore', 'python3-pbcore', 'python3-pil:amd64', 'python3-pkg-resources', 'python3-pysam', 'python3-reportlab', 'python3-reportlab-accel:amd64', 'python3-requests', 'python3-six', 'python3-tz', 'python3-urllib3', 'python3.9', 'python3.9-minimal', 'readline-common', 'zlib1g-dev:amd64'] 0m39.0s DUMP: (Reading database ... 6676 files and directories currently installed.) Purging configuration files for ca-certificates (20210119) ... Removing dangling symlinks from /etc/ssl/certs... done. dpkg: warning: ignoring request to remove hdf5-helpers which isn't installed dpkg: warning: ignoring request to remove libaec-dev which isn't installed dpkg: warning: ignoring request to remove libaec0 which isn't installed dpkg: warning: ignoring request to remove libblas3 which isn't installed dpkg: warning: ignoring request to remove libblasr-dev which isn't installed dpkg: warning: ignoring request to remove libblasr5.3.4 which isn't installed dpkg: warning: ignoring request to remove libbrotli1 which isn't installed dpkg: warning: ignoring request to remove libbsd0 which isn't installed dpkg: warning: ignoring request to remove libc-dev-bin which isn't installed dpkg: warning: ignoring request to remove libc6-dev which isn't installed dpkg: warning: ignoring request to remove libcrypt-dev which isn't installed dpkg: warning: ignoring request to remove libcurl3-gnutls which isn't installed dpkg: warning: ignoring request to remove libcurl4-gnutls-dev which isn't installed dpkg: warning: ignoring request to remove libdeflate-dev which isn't installed dpkg: warning: ignoring request to remove libdeflate0 which isn't installed dpkg: warning: ignoring request to remove libexpat1 which isn't installed dpkg: warning: ignoring request to remove libfreetype6 which isn't installed dpkg: warning: ignoring request to remove libgdbm-compat4 which isn't installed dpkg: warning: ignoring request to remove libgdbm6 which isn't installed dpkg: warning: ignoring request to remove libgfortran5 which isn't installed dpkg: warning: ignoring request to remove libhdf5-103-1 which isn't installed dpkg: warning: ignoring request to remove libhdf5-cpp-103-1 which isn't installed dpkg: warning: ignoring request to remove libhdf5-dev which isn't installed dpkg: warning: ignoring request to remove libhdf5-fortran-102 which isn't installed dpkg: warning: ignoring request to remove libhdf5-hl-100 which isn't installed dpkg: warning: ignoring request to remove libhdf5-hl-cpp-100 which isn't installed dpkg: warning: ignoring request to remove libhdf5-hl-fortran-100 which isn't installed dpkg: warning: ignoring request to remove libhts-dev which isn't installed dpkg: warning: ignoring request to remove libhts3 which isn't installed dpkg: warning: ignoring request to remove libimagequant0 which isn't installed dpkg: warning: ignoring request to remove libjbig0 which isn't installed dpkg: warning: ignoring request to remove libjpeg-dev which isn't installed dpkg: warning: ignoring request to remove libjpeg62-turbo which isn't installed dpkg: warning: ignoring request to remove libjpeg62-turbo-dev which isn't installed dpkg: warning: ignoring request to remove liblapack3 which isn't installed dpkg: warning: ignoring request to remove liblcms2-2 which isn't installed dpkg: warning: ignoring request to remove libldap-2.4-2 which isn't installed dpkg: warning: ignoring request to remove liblzma-dev which isn't installed dpkg: warning: ignoring request to remove libmd0 which isn't installed dpkg: warning: ignoring request to remove libmpdec3 which isn't installed dpkg: warning: ignoring request to remove libncursesw6 which isn't installed dpkg: warning: ignoring request to remove libnghttp2-14 which isn't installed dpkg: warning: ignoring request to remove libnsl-dev which isn't installed dpkg: warning: ignoring request to remove libpbbam-dev which isn't installed dpkg: warning: ignoring request to remove libpbbam1.6.0 which isn't installed dpkg: warning: ignoring request to remove libpbcopper-dev which isn't installed dpkg: warning: ignoring request to remove libpbcopper1.8.0 which isn't installed dpkg: warning: ignoring request to remove libpbdata-dev which isn't installed dpkg: warning: ignoring request to remove libpbihdf-dev which isn't installed dpkg: warning: ignoring request to remove libpbseq-dev which isn't installed dpkg: warning: ignoring request to remove libperl5.32 which isn't installed dpkg: warning: ignoring request to remove libpng16-16 which isn't installed dpkg: warning: ignoring request to remove libpsl5 which isn't installed dpkg: warning: ignoring request to remove libpython3-stdlib which isn't installed Purging configuration files for libpython3.9-minimal:amd64 (3.9.2-1) ... dpkg: warning: ignoring request to remove libpython3.9-stdlib which isn't installed dpkg: warning: ignoring request to remove libquadmath0 which isn't installed dpkg: warning: ignoring request to remove libreadline8 which isn't installed dpkg: warning: ignoring request to remove librtmp1 which isn't installed dpkg: warning: ignoring request to remove libsasl2-2 which isn't installed dpkg: warning: ignoring request to remove libsasl2-modules-db which isn't installed dpkg: warning: ignoring request to remove libsqlite3-0 which isn't installed dpkg: warning: ignoring request to remove libssh2-1 which isn't installed dpkg: warning: ignoring request to remove libssl-dev which isn't installed dpkg: warning: ignoring request to remove libsz2 which isn't installed dpkg: warning: ignoring request to remove libtiff5 which isn't installed dpkg: warning: ignoring request to remove libtirpc-dev which isn't installed dpkg: warning: ignoring request to remove libwebp6 which isn't installed dpkg: warning: ignoring request to remove libwebpdemux2 which isn't installed dpkg: warning: ignoring request to remove libwebpmux3 which isn't installed dpkg: warning: ignoring request to remove libxau6 which isn't installed dpkg: warning: ignoring request to remove libxcb1 which isn't installed dpkg: warning: ignoring request to remove libxdmcp6 which isn't installed dpkg: warning: ignoring request to remove linux-libc-dev which isn't installed Purging configuration files for mailcap (3.69) ... Purging configuration files for media-types (4.0.0) ... dpkg: warning: ignoring request to remove mime-support which isn't installed Purging configuration files for openssl (1.1.1w-0+deb11u1) ... Purging configuration files for perl (5.32.1-4+deb11u2) ... dpkg: warning: ignoring request to remove perl-modules-5.32 which isn't installed Purging configuration files for python3 (3.9.2-3) ... dpkg: warning: ignoring request to remove python3-avro which isn't installed dpkg: warning: ignoring request to remove python3-biopython which isn't installed dpkg: warning: ignoring request to remove python3-certifi which isn't installed dpkg: warning: ignoring request to remove python3-chardet which isn't installed dpkg: warning: ignoring request to remove python3-idna which isn't installed dpkg: warning: ignoring request to remove python3-iso8601 which isn't installed dpkg: warning: ignoring request to remove python3-minimal which isn't installed dpkg: warning: ignoring request to remove python3-numpy which isn't installed dpkg: warning: ignoring request to remove python3-pbcommand which isn't installed dpkg: warning: ignoring request to remove python3-pbconsensuscore which isn't installed dpkg: warning: ignoring request to remove python3-pbcore which isn't installed dpkg: warning: ignoring request to remove python3-pil which isn't installed dpkg: warning: ignoring request to remove python3-pkg-resources which isn't installed dpkg: warning: ignoring request to remove python3-pysam which isn't installed dpkg: warning: ignoring request to remove python3-reportlab which isn't installed dpkg: warning: ignoring request to remove python3-reportlab-accel which isn't installed dpkg: warning: ignoring request to remove python3-requests which isn't installed dpkg: warning: ignoring request to remove python3-six which isn't installed dpkg: warning: ignoring request to remove python3-tz which isn't installed dpkg: warning: ignoring request to remove python3-urllib3 which isn't installed dpkg: warning: ignoring request to remove python3.9 which isn't installed Purging configuration files for python3.9-minimal (3.9.2-1) ... Purging configuration files for readline-common (8.1-1) ... dpkg: warning: ignoring request to remove zlib1g-dev which isn't installed 0m39.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'dpkg', '--purge', 'ca-certificates', 'hdf5-helpers', 'libaec-dev:amd64', 'libaec0:amd64', 'libblas3:amd64', 'libblasr-dev', 'libblasr5.3.4', 'libbrotli1:amd64', 'libbsd0:amd64', 'libc-dev-bin', 'libc6-dev:amd64', 'libcrypt-dev:amd64', 'libcurl3-gnutls:amd64', 'libcurl4-gnutls-dev:amd64', 'libdeflate-dev:amd64', 'libdeflate0:amd64', 'libexpat1:amd64', 'libfreetype6:amd64', 'libgdbm-compat4:amd64', 'libgdbm6:amd64', 'libgfortran5:amd64', 'libhdf5-103-1:amd64', 'libhdf5-cpp-103-1:amd64', 'libhdf5-dev', 'libhdf5-fortran-102:amd64', 'libhdf5-hl-100:amd64', 'libhdf5-hl-cpp-100:amd64', 'libhdf5-hl-fortran-100:amd64', 'libhts-dev:amd64', 'libhts3:amd64', 'libimagequant0:amd64', 'libjbig0:amd64', 'libjpeg-dev:amd64', 'libjpeg62-turbo:amd64', 'libjpeg62-turbo-dev:amd64', 'liblapack3:amd64', 'liblcms2-2:amd64', 'libldap-2.4-2:amd64', 'liblzma-dev:amd64', 'libmd0:amd64', 'libmpdec3:amd64', 'libncursesw6:amd64', 'libnghttp2-14:amd64', 'libnsl-dev:amd64', 'libpbbam-dev', 'libpbbam1.6.0:amd64', 'libpbcopper-dev:amd64', 'libpbcopper1.8.0:amd64', 'libpbdata-dev', 'libpbihdf-dev', 'libpbseq-dev', 'libperl5.32:amd64', 'libpng16-16:amd64', 'libpsl5:amd64', 'libpython3-stdlib:amd64', 'libpython3.9-minimal:amd64', 'libpython3.9-stdlib:amd64', 'libquadmath0:amd64', 'libreadline8:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsqlite3-0:amd64', 'libssh2-1:amd64', 'libssl-dev:amd64', 'libsz2:amd64', 'libtiff5:amd64', 'libtirpc-dev:amd64', 'libwebp6:amd64', 'libwebpdemux2:amd64', 'libwebpmux3:amd64', 'libxau6:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'linux-libc-dev:amd64', 'mailcap', 'media-types', 'mime-support', 'openssl', 'perl', 'perl-modules-5.32', 'python3', 'python3-avro', 'python3-biopython', 'python3-certifi', 'python3-chardet', 'python3-idna', 'python3-iso8601', 'python3-minimal', 'python3-numpy', 'python3-pbcommand', 'python3-pbconsensuscore', 'python3-pbcore', 'python3-pil:amd64', 'python3-pkg-resources', 'python3-pysam', 'python3-reportlab', 'python3-reportlab-accel:amd64', 'python3-requests', 'python3-six', 'python3-tz', 'python3-urllib3', 'python3.9', 'python3.9-minimal', 'readline-common', 'zlib1g-dev:amd64'] 0m39.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'dpkg', '--purge', 'smrtanalysis-dev'] 0m39.1s DUMP: dpkg: warning: ignoring request to remove smrtanalysis-dev which isn't installed 0m39.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'dpkg', '--purge', 'smrtanalysis-dev'] 0m39.1s INFO: Running scripts post_purge 0m39.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'tmp/scripts/post_purge_exceptions'] 0m39.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'tmp/scripts/post_purge_exceptions'] 0m39.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'dpkg', '--purge', '--pending'] 0m39.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'dpkg', '--purge', '--pending'] 0m39.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'dpkg', '--remove', '--pending'] 0m39.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'dpkg', '--remove', '--pending'] 0m39.1s INFO: Running scripts post_test 0m39.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'tmp/scripts/post_test_exceptions'] 0m39.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'tmp/scripts/post_test_exceptions'] 0m39.1s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_'] 0m39.5s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_'] 0m40.0s DEBUG: No broken symlinks as far as we can find. 0m40.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'dpkg-divert', '--list'] 0m40.0s DUMP: local diversion of /bin/sync to /bin/sync.distrib diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by dash local diversion of /home to /home.distrib diversion of /bin/sh to /bin/sh.distrib by dash 0m40.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'dpkg-divert', '--list'] 0m40.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'apt-get', 'clean'] 0m40.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_', 'apt-get', 'clean'] 0m40.1s DEBUG: Recording chroot state 0m40.5s INFO: PASS: Installation and purging test. 0m41.0s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_/dev/shm'] 0m41.0s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_/dev/shm'] 0m41.0s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_/dev/console'] 0m41.0s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_/dev/console'] 0m41.0s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_/dev/ptmx'] 0m41.0s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_/dev/ptmx'] 0m41.0s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_/dev/pts'] 0m41.0s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_/dev/pts'] 0m41.0s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_/proc'] 0m41.1s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_/proc'] 0m41.1s DEBUG: Starting command: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_'] 0m41.2s DEBUG: Command ok: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmp8bnovf3_'] 0m41.2s DEBUG: Removed directory tree at /srv/piuparts.debian.org/tmp/tmp8bnovf3_ 0m41.2s INFO: PASS: All tests. 0m41.2s INFO: piuparts run ends. ret=0 End: 2024-01-29 06:54:28 GMT